data_7ZVK
#
_model_server_result.job_id            yj7AHU0eWsOS9hhVOqwhHg 
_model_server_result.datetime_utc      '2024-11-24 21:15:38' 
_model_server_result.server_version    0.9.12 
_model_server_result.query_name        ligand 
_model_server_result.source_id         pdb-bcif 
_model_server_result.entry_id          7zvk 
#
_model_server_params.name     atom_site 
_model_server_params.value    '{"label_asym_id":"C","auth_seq_id":401}' 
#
_entry.id    7ZVK 
#
_exptl.entry_id    7ZVK 
_exptl.method      'X-RAY DIFFRACTION' 
#
_entity.details                     ? 
_entity.formula_weight              659.415 
_entity.id                          2 
_entity.src_method                  syn 
_entity.type                        non-polymer 
_entity.pdbx_description            9-[(1~{R},6~{R},8~{R},9~{R},10~{R},15~{R},17~{R},18~{S})-8-(6-aminopurin-9-yl)-9-fluoranyl-3,12,18-tris(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.3.0.0^{6,10}]octadecan-17-yl]-3~{H}-purin-6-one 
_entity.pdbx_number_of_molecules    1 
_entity.pdbx_parent_entity_id       . 
_entity.pdbx_mutation               ? 
_entity.pdbx_fragment               ? 
_entity.pdbx_ec                     ? 
#
_cell.angle_alpha         90 
_cell.angle_beta          90 
_cell.angle_gamma         90 
_cell.entry_id            7ZVK 
_cell.length_a            145.256 
_cell.length_b            145.256 
_cell.length_c            36.046 
_cell.Z_PDB               16 
_cell.pdbx_unique_axis    ? 
#
_symmetry.entry_id                 7ZVK 
_symmetry.cell_setting             ? 
_symmetry.Int_Tables_number        80 
_symmetry.space_group_name_Hall    'I 4bw' 
_symmetry.space_group_name_H-M     'I 41' 
#
_pdbx_struct_assembly.method_details        PISA 
_pdbx_struct_assembly.oligomeric_details    dimeric 
_pdbx_struct_assembly.oligomeric_count      2 
_pdbx_struct_assembly.details               author_and_software_defined_assembly 
_pdbx_struct_assembly.id                    1 
#
_pdbx_struct_assembly_gen.asym_id_list       A,B,C 
_pdbx_struct_assembly_gen.assembly_id        1 
_pdbx_struct_assembly_gen.oper_expression    1 
#
_pdbx_struct_oper_list.id                    1 
_pdbx_struct_oper_list.type                  'identity operation' 
_pdbx_struct_oper_list.name                  1_555 
_pdbx_struct_oper_list.symmetry_operation    x,y,z 
_pdbx_struct_oper_list.matrix[1][1]          1 
_pdbx_struct_oper_list.matrix[1][2]          0 
_pdbx_struct_oper_list.matrix[1][3]          0 
_pdbx_struct_oper_list.matrix[2][1]          0 
_pdbx_struct_oper_list.matrix[2][2]          1 
_pdbx_struct_oper_list.matrix[2][3]          0 
_pdbx_struct_oper_list.matrix[3][1]          0 
_pdbx_struct_oper_list.matrix[3][2]          0 
_pdbx_struct_oper_list.matrix[3][3]          1 
_pdbx_struct_oper_list.vector[1]             0 
_pdbx_struct_oper_list.vector[2]             0 
_pdbx_struct_oper_list.vector[3]             0 
#
_struct_asym.details                        ? 
_struct_asym.entity_id                      2 
_struct_asym.id                             C 
_struct_asym.pdbx_modified                  N 
_struct_asym.pdbx_blank_PDB_chainid_flag    N 
#
_chem_comp.formula           'C21 H24 F N9 O11 P2' 
_chem_comp.formula_weight    659.415 
_chem_comp.id                K1L 
_chem_comp.mon_nstd_flag     . 
_chem_comp.name              9-[(1~{R},6~{R},8~{R},9~{R},10~{R},15~{R},17~{R},18~{S})-8-(6-aminopurin-9-yl)-9-fluoranyl-3,12,18-tris(oxidanyl)-3,12-bis(oxidanylidene)-2,4,7,11,13-pentaoxa-3$l^{5},12$l^{5}-diphosphatricyclo[13.3.0.0^{6,10}]octadecan-17-yl]-3~{H}-purin-6-one 
_chem_comp.type              non-polymer 
_chem_comp.pdbx_synonyms     ? 
#
loop_
_chem_comp_bond.atom_id_1
_chem_comp_bond.atom_id_2
_chem_comp_bond.comp_id
_chem_comp_bond.value_order
_chem_comp_bond.pdbx_ordinal
_chem_comp_bond.pdbx_stereo_config
_chem_comp_bond.pdbx_aromatic_flag
O25A P25 K1L doub 171 n n 
O25B P25 K1L sing 172 n n 
P25 O25 K1L sing 173 n n 
P25 O33 K1L sing 174 n n 
N7 C8 K1L doub 175 n y 
N7 C5 K1L sing 176 n y 
O25 C25 K1L sing 177 n n 
C8 N9 K1L sing 178 n y 
O24 C21 K1L sing 179 n n 
O24 C24 K1L sing 180 n n 
N6 C6 K1L sing 181 n n 
C25 C24 K1L sing 182 n n 
C5 C6 K1L doub 183 n y 
C5 C4 K1L sing 184 n y 
N9 C21 K1L sing 185 n n 
N9 C4 K1L sing 186 n y 
C6 N1 K1L sing 187 n y 
C21 C22 K1L sing 188 n n 
C4 N3 K1L doub 189 n y 
C24 C23 K1L sing 190 n n 
O33 C33 K1L sing 191 n n 
N1 C2 K1L doub 192 n y 
N3 C2 K1L sing 193 n y 
O32 C32 K1L sing 194 n n 
C32 C33 K1L sing 195 n n 
C32 C31 K1L sing 196 n n 
C33 C34 K1L sing 197 n n 
C22 C23 K1L sing 198 n n 
C22 F22 K1L sing 199 n n 
C23 O23 K1L sing 200 n n 
C12 N13 K1L sing 201 n n 
C12 N11 K1L doub 202 n n 
N13 C14 K1L sing 203 n n 
N11 C16 K1L sing 204 n n 
O23 P35 K1L sing 205 n n 
C34 C35 K1L sing 206 n n 
C34 C36 K1L sing 207 n n 
C14 C15 K1L doub 208 n y 
C14 N19 K1L sing 209 n y 
C16 C15 K1L sing 210 n n 
C16 O16 K1L doub 211 n n 
C31 N19 K1L sing 212 n n 
C31 C36 K1L sing 213 n n 
C15 N17 K1L sing 214 n y 
N19 C18 K1L sing 215 n y 
C35 O35 K1L sing 216 n n 
C18 N17 K1L doub 217 n y 
O35 P35 K1L sing 218 n n 
P35 O35A K1L doub 219 n n 
P35 O35B K1L sing 220 n n 
C2 H1 K1L sing 221 n n 
C12 H2 K1L sing 222 n n 
C22 H3 K1L sing 223 n n 
C24 H4 K1L sing 224 n n 
C25 H5 K1L sing 225 n n 
C25 H6 K1L sing 226 n n 
C34 H7 K1L sing 227 n n 
C18 H8 K1L sing 228 n n 
C21 H9 K1L sing 229 n n 
C23 H10 K1L sing 230 n n 
C31 H11 K1L sing 231 n n 
C32 H12 K1L sing 232 n n 
C33 H13 K1L sing 233 n n 
C35 H14 K1L sing 234 n n 
C35 H15 K1L sing 235 n n 
C36 H16 K1L sing 236 n n 
C36 H17 K1L sing 237 n n 
C8 H18 K1L sing 238 n n 
N13 H19 K1L sing 239 n n 
N6 H20 K1L sing 240 n n 
N6 H21 K1L sing 241 n n 
O32 H22 K1L sing 242 n n 
O25B H23 K1L sing 243 n n 
O35B H24 K1L sing 244 n n 
#
_atom_sites.entry_id                     7ZVK 
_atom_sites.fract_transf_matrix[1][1]    0.006884 
_atom_sites.fract_transf_matrix[1][2]    0 
_atom_sites.fract_transf_matrix[1][3]    0 
_atom_sites.fract_transf_matrix[2][1]    0 
_atom_sites.fract_transf_matrix[2][2]    0.006884 
_atom_sites.fract_transf_matrix[2][3]    0 
_atom_sites.fract_transf_matrix[3][1]    0 
_atom_sites.fract_transf_matrix[3][2]    0 
_atom_sites.fract_transf_matrix[3][3]    0.027742 
_atom_sites.fract_transf_vector[1]       0 
_atom_sites.fract_transf_vector[2]       0 
_atom_sites.fract_transf_vector[3]       0 
#
_pdbx_nonpoly_scheme.asym_id          C 
_pdbx_nonpoly_scheme.entity_id        2 
_pdbx_nonpoly_scheme.mon_id           K1L 
_pdbx_nonpoly_scheme.pdb_strand_id    B 
_pdbx_nonpoly_scheme.ndb_seq_num      1 
_pdbx_nonpoly_scheme.pdb_seq_num      401 
_pdbx_nonpoly_scheme.auth_seq_num     1 
_pdbx_nonpoly_scheme.pdb_mon_id       K1L 
_pdbx_nonpoly_scheme.auth_mon_id      62 
_pdbx_nonpoly_scheme.pdb_ins_code     . 
#
loop_
_atom_site.group_PDB
_atom_site.id
_atom_site.type_symbol
_atom_site.label_atom_id
_atom_site.label_comp_id
_atom_site.label_seq_id
_atom_site.label_alt_id
_atom_site.pdbx_PDB_ins_code
_atom_site.label_asym_id
_atom_site.label_entity_id
_atom_site.Cartn_x
_atom_site.Cartn_y
_atom_site.Cartn_z
_atom_site.occupancy
_atom_site.B_iso_or_equiv
_atom_site.pdbx_formal_charge
_atom_site.auth_atom_id
_atom_site.auth_comp_id
_atom_site.auth_seq_id
_atom_site.auth_asym_id
_atom_site.pdbx_PDB_model_num
HETATM 1 N N1 K1L . A . C 2 9.065 29.128 17.034 0.5 54.37 ? N1 K1L 401 B 1 
HETATM 2 N N1 K1L . B . C 2 1.146 32.924 18.672 0.5 58.16 ? N1 K1L 401 B 1 
HETATM 3 C C2 K1L . A . C 2 9.334 27.857 17.347 0.5 54.06 ? C2 K1L 401 B 1 
HETATM 4 C C2 K1L . B . C 2 0.033 32.255 18.352 0.5 54.2 ? C2 K1L 401 B 1 
HETATM 5 C C4 K1L . A . C 2 7.391 27.094 16.621 0.5 52.38 ? C4 K1L 401 B 1 
HETATM 6 C C4 K1L . B . C 2 0.792 30.313 19.089 0.5 54.15 ? C4 K1L 401 B 1 
HETATM 7 C C5 K1L . A . C 2 6.968 28.358 16.243 0.5 54.18 ? C5 K1L 401 B 1 
HETATM 8 C C5 K1L . B . C 2 2.002 30.865 19.475 0.5 54.43 ? C5 K1L 401 B 1 
HETATM 9 C C6 K1L . A . C 2 7.87 29.413 16.472 0.5 55.83 ? C6 K1L 401 B 1 
HETATM 10 C C6 K1L . B . C 2 2.164 32.243 19.244 0.5 58.18 ? C6 K1L 401 B 1 
HETATM 11 C C12 K1L . A . C 2 0.108 32.33 18.44 0.5 54.28 ? C12 K1L 401 B 1 
HETATM 12 C C12 K1L . B . C 2 9.558 27.619 17.225 0.5 53.87 ? C12 K1L 401 B 1 
HETATM 13 C C14 K1L . A . C 2 0.879 30.262 19.135 0.5 54.68 ? C14 K1L 401 B 1 
HETATM 14 C C14 K1L . B . C 2 7.452 26.908 16.579 0.5 52.48 ? C14 K1L 401 B 1 
HETATM 15 C C15 K1L . A . C 2 2.085 30.827 19.436 0.5 54.59 ? C15 K1L 401 B 1 
HETATM 16 C C15 K1L . B . C 2 7.125 28.198 16.275 0.5 53.91 ? C15 K1L 401 B 1 
HETATM 17 C C16 K1L . A . C 2 2.243 32.208 19.206 0.5 59.39 ? C16 K1L 401 B 1 
HETATM 18 C C16 K1L . B . C 2 8.1 29.193 16.478 0.5 55.27 ? C16 K1L 401 B 1 
HETATM 19 C C22 K1L . A . C 2 6.076 24.393 17.964 0.5 52.49 ? C22 K1L 401 B 1 
HETATM 20 C C22 K1L . B . C 2 -0.251 27.471 17.754 0.5 52.38 ? C22 K1L 401 B 1 
HETATM 21 C C24 K1L . A . C 2 4.325 23.6 16.68 0.5 51.67 ? C24 K1L 401 B 1 
HETATM 22 C C24 K1L . B . C 2 0.179 25.664 19.13 0.5 54.32 ? C24 K1L 401 B 1 
HETATM 23 C C25 K1L . A . C 2 2.913 23.689 16.155 0.5 50.5 ? C25 K1L 401 B 1 
HETATM 24 C C25 K1L . B . C 2 1.084 24.605 19.716 0.5 53.57 ? C25 K1L 401 B 1 
HETATM 25 C C34 K1L . A . C 2 0.197 25.513 19.12 0.5 54.4 ? C34 K1L 401 B 1 
HETATM 26 C C34 K1L . B . C 2 4.158 23.454 16.711 0.5 51.74 ? C34 K1L 401 B 1 
HETATM 27 C C18 K1L . A . C 2 2.235 28.746 19.918 0.5 54.66 ? C18 K1L 401 B 1 
HETATM 28 C C18 K1L . B . C 2 5.406 26.999 15.839 0.5 53.46 ? C18 K1L 401 B 1 
HETATM 29 C C21 K1L . A . C 2 6.322 24.802 16.512 0.5 52.09 ? C21 K1L 401 B 1 
HETATM 30 C C21 K1L . B . C 2 -0.162 27.97 19.198 0.5 54.38 ? C21 K1L 401 B 1 
HETATM 31 C C23 K1L . A . C 2 4.562 24.292 17.998 0.5 53.91 ? C23 K1L 401 B 1 
HETATM 32 C C23 K1L . B . C 2 0.618 26.226 17.803 0.5 53.96 ? C23 K1L 401 B 1 
HETATM 33 C C31 K1L . A . C 2 -0.118 27.939 19.272 0.5 52.16 ? C31 K1L 401 B 1 
HETATM 34 C C31 K1L . B . C 2 6.277 24.668 16.485 0.5 52.13 ? C31 K1L 401 B 1 
HETATM 35 C C32 K1L . A . C 2 -0.278 27.421 17.85 0.5 53.28 ? C32 K1L 401 B 1 
HETATM 36 C C32 K1L . B . C 2 6.014 24.224 17.915 0.5 52.44 ? C32 K1L 401 B 1 
HETATM 37 C C33 K1L . A . C 2 0.629 26.214 17.859 0.5 54.77 ? C33 K1L 401 B 1 
HETATM 38 C C33 K1L . B . C 2 4.505 24.224 17.96 0.5 52.81 ? C33 K1L 401 B 1 
HETATM 39 C C35 K1L . A . C 2 1.135 24.43 19.597 0.5 53.68 ? C35 K1L 401 B 1 
HETATM 40 C C35 K1L . B . C 2 2.72 23.581 16.269 0.5 50.51 ? C35 K1L 401 B 1 
HETATM 41 C C36 K1L . A . C 2 0.069 26.673 20.129 0.5 51.54 ? C36 K1L 401 B 1 
HETATM 42 C C36 K1L . B . C 2 5.149 24.011 15.668 0.5 52.11 ? C36 K1L 401 B 1 
HETATM 43 C C8 K1L . A . C 2 5.379 27.039 15.756 0.5 53.82 ? C8 K1L 401 B 1 
HETATM 44 C C8 K1L . B . C 2 2.115 28.804 19.968 0.5 54.8 ? C8 K1L 401 B 1 
HETATM 45 F F22 K1L . A . C 2 6.624 23.122 18.164 0.5 53.32 ? F22 K1L 401 B 1 
HETATM 46 F F22 K1L . B . C 2 -1.573 27.094 17.497 0.5 51.8 ? F22 K1L 401 B 1 
HETATM 47 N N11 K1L . A . C 2 1.257 32.964 18.708 0.5 58.43 ? N11 K1L 401 B 1 
HETATM 48 N N11 K1L . B . C 2 9.32 28.908 16.953 0.5 54.52 ? N11 K1L 401 B 1 
HETATM 49 N N13 K1L . A . C 2 -0.149 30.991 18.628 0.5 55.65 ? N13 K1L 401 B 1 
HETATM 50 N N13 K1L . B . C 2 8.677 26.573 17.064 0.5 52.54 ? N13 K1L 401 B 1 
HETATM 51 N N17 K1L . A . C 2 2.95 29.862 19.935 0.5 54.75 ? N17 K1L 401 B 1 
HETATM 52 N N17 K1L . B . C 2 5.82 28.257 15.803 0.5 56.37 ? N17 K1L 401 B 1 
HETATM 53 N N19 K1L . A . C 2 0.964 28.934 19.437 0.5 53.58 ? N19 K1L 401 B 1 
HETATM 54 N N19 K1L . B . C 2 6.362 26.134 16.307 0.5 53.41 ? N19 K1L 401 B 1 
HETATM 55 N N3 K1L . A . C 2 8.564 26.779 17.179 0.5 52.43 ? N3 K1L 401 B 1 
HETATM 56 N N3 K1L . B . C 2 -0.234 30.957 18.522 0.5 55.69 ? N3 K1L 401 B 1 
HETATM 57 N N6 K1L . A . C 2 7.571 30.676 16.148 0.5 61.03 ? N6 K1L 401 B 1 
HETATM 58 N N6 K1L . B . C 2 3.29 32.884 19.575 0.5 60.19 ? N6 K1L 401 B 1 
HETATM 59 N N7 K1L . A . C 2 5.695 28.312 15.698 0.5 56.58 ? N7 K1L 401 B 1 
HETATM 60 N N7 K1L . B . C 2 2.831 29.903 20.029 0.5 54.77 ? N7 K1L 401 B 1 
HETATM 61 N N9 K1L . A . C 2 6.361 26.247 16.303 0.5 52.69 ? N9 K1L 401 B 1 
HETATM 62 N N9 K1L . B . C 2 0.869 28.982 19.411 0.5 53.84 ? N9 K1L 401 B 1 
HETATM 63 O O16 K1L . A . C 2 3.324 32.737 19.471 0.5 60.45 ? O16 K1L 401 B 1 
HETATM 64 O O16 K1L . B . C 2 7.824 30.364 16.21 0.5 60.28 ? O16 K1L 401 B 1 
HETATM 65 O O23 K1L . A . C 2 4.154 23.446 19.107 0.5 52.17 ? O23 K1L 401 B 1 
HETATM 66 O O23 K1L . B . C 2 0.249 25.337 16.715 0.5 53.85 ? O23 K1L 401 B 1 
HETATM 67 O O24 K1L . A . C 2 5.231 24.271 15.772 0.5 51.59 ? O24 K1L 401 B 1 
HETATM 68 O O24 K1L . B . C 2 0.15 26.828 19.987 0.5 51.43 ? O24 K1L 401 B 1 
HETATM 69 O O25 K1L . A . C 2 2.652 25.032 15.704 0.5 52.74 ? O25 K1L 401 B 1 
HETATM 70 O O25 K1L . B . C 2 2.365 25.179 20.037 0.5 50.22 ? O25 K1L 401 B 1 
HETATM 71 O O32 K1L . A . C 2 -1.631 26.989 17.659 0.5 51.61 ? O32 K1L 401 B 1 
HETATM 72 O O32 K1L . B . C 2 6.49 22.882 18.082 0.5 53.11 ? O32 K1L 401 B 1 
HETATM 73 O O33 K1L . A . C 2 0.36 25.354 16.72 0.5 53.7 ? O33 K1L 401 B 1 
HETATM 74 O O33 K1L . B . C 2 4.017 23.496 19.118 0.5 52.11 ? O33 K1L 401 B 1 
HETATM 75 O O35 K1L . A . C 2 2.383 24.997 20.04 0.5 50.39 ? O35 K1L 401 B 1 
HETATM 76 O O35 K1L . B . C 2 2.493 24.861 15.646 0.5 52.98 ? O35 K1L 401 B 1 
HETATM 77 P P25 K1L . A . C 2 1.174 25.499 15.361 0.5 56.54 ? P25 K1L 401 B 1 
HETATM 78 P P25 K1L . B . C 2 3.585 24.25 20.451 0.5 52.71 ? P25 K1L 401 B 1 
HETATM 79 P P35 K1L . A . C 2 3.601 24.07 20.463 0.5 53.13 ? P35 K1L 401 B 1 
HETATM 80 P P35 K1L . B . C 2 1.023 25.369 15.326 0.5 57.15 ? P35 K1L 401 B 1 
HETATM 81 O O25A K1L . A . C 2 0.593 24.579 14.326 0.5 59.78 ? O25A K1L 401 B 1 
HETATM 82 O O25A K1L . B . C 2 4.721 25.104 20.928 0.5 56.76 ? O25A K1L 401 B 1 
HETATM 83 O O25B K1L . A . C 2 1.193 26.938 14.944 0.5 56.14 ? O25B K1L 401 B 1 
HETATM 84 O O25B K1L . B . C 2 3.12 23.248 21.467 0.5 54.94 ? O25B K1L 401 B 1 
HETATM 85 O O35A K1L . A . C 2 4.668 24.911 21.095 0.5 56.96 ? O35A K1L 401 B 1 
HETATM 86 O O35A K1L . B . C 2 1.085 26.78 14.826 0.5 56.42 ? O35A K1L 401 B 1 
HETATM 87 O O35B K1L . A . C 2 3.099 22.975 21.356 0.5 54.79 ? O35B K1L 401 B 1 
HETATM 88 O O35B K1L . B . C 2 0.372 24.424 14.36 0.5 59.52 ? O35B K1L 401 B 1 
#
_model_server_stats.io_time_ms              68 
_model_server_stats.parse_time_ms           9 
_model_server_stats.create_model_time_ms    3 
_model_server_stats.query_time_ms           241 
_model_server_stats.encode_time_ms          4 
_model_server_stats.element_count           88 
#